People want things that work, if embedding P96 into the OS means interfering with using CGFx, then no... I would not want that.
What means "interferring"? Most - if not all - CGX based software works with a Picasso96 installed systems (like one of my A2000's). Same is true for (most) CGX aware software that I use with AmigaOS 4.1 FEU1, which has no real "Picasso96" anymore - it is integrated into the OS itself (mostly graphics library).
So I assume it is all matter of stub/wrapper design, which we have since ages between Picasso and CyberGrafX.